Fig. 2

Comparison of results among NEEM-seq, WGBS and EM-seq. A Methylation bias plot of reads. This plot shows the average percentage of methylation across each position in the reads 1 and reads 2. The left end of the horizontal coordinate corresponds to the front end of reads. The 15 bases from the front end of reads 2 and tail end of reads 1 have been trimmed before mapping. In the cfDNA EM-seq result (indicated by a black arrow), from the tail end to the front end of reads 2 (i.e., from the 5′ end to the 3′ end of cfDNA fragments), the methylation ratio decreased gradually and obviously. B GC bias plot which shows the normalized coverage depth on genomic regions (200 bp sliding window) with various GC contents. C Coverage ratio of CpGs in each genomic feature. D The frequency distribution of CpGs coverage depth in each genomic feature. The same samples, the same amount of DNA input, and the same sequencing depth were applied across different libraries